https://github.com/fzimmermann89/idi

Simulating, Reconstructing and Analysing Data for FEL IDI Experiments
https://github.com/fzimmermann89/idi

fel idi incoherent-images reconstruction simulation xray

Last synced: 4 months ago
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Simulating, Reconstructing and Analysing Data for FEL IDI Experiments

• Host: GitHub
• URL: https://github.com/fzimmermann89/idi
• Owner: fzimmermann89
• License: bsd-2-clause
• Created: 2019-01-10T22:11:38.000Z (over 6 years ago)
• Default Branch: master
• Last Pushed: 2025-04-01T11:00:17.000Z (6 months ago)
• Last Synced: 2025-04-01T11:30:54.938Z (6 months ago)
• Topics: fel, idi, incoherent-images, reconstruction, simulation, xray
• Language: Python
• Homepage:
• Size: 3.75 MB
• Stars: 3
• Watchers: 2
• Forks: 2
• Open Issues: 1
• Metadata Files:
  • Readme: README.md
  • License: License

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README

          

# IDI - INCOHERENT DIFFRACTION IMAGING 🐉

![tests](https://github.com/fzimmermann89/idi/actions/workflows/test.yml/badge.svg)

Singularity Image now at [library://fzimmermann89/idi/idi](https://cloud.sylabs.io/library/_container/607b669a4ad4aa1fdea0c43c)

Conda Pacakges at [zimmf/idi](https://anaconda.org/zimmf/idi)

PIP Source and Wheels at [idi](https://pypi.org/project/idi/)

Wheels at [Releases](https://github.com/fzimmermann89/idi/releases/latest)

content of the repo

-------------------

- ipynb: example notebooks

- simulation: simulation of incoherent images

- reconstruction: direct and ft based reconstruction

- util: some small utilities for data analysis, geometry and random distributions, etc.

installation

------------

- for gpu support you need to install a cupy version matching your cuda version

- afterwards, pip install 'git+' to get the latest version

preparation for slac sdf

------------------------

Use Singulariy, if using OOD launcher, use the following to start a jupyterhub

```

    function jupyter() { singularity run --app jupyter --nv -B /sdf,/gpfs,/scratch,/lscratch library://fzimmermann89/idi/idi $@; }

```

preparation for sacla

---------------------

- Download and install miniconda, setup ssh tunnel for web access.

- `conda create -n local3 python=3.7 numpy mkl mkl-dev ipython ipykernel cython jinja2 numba numexpr matplotlib six scipy jupyterlab`

- `conda activate local3`

- `pip install https://github.com/fzimmermann89/idi/`

- `python -m ipykernel install --user --name local-simulation-env3 --display-name "local simulation(py37)"`

(C) Felix Zimmermann